Getting it into your agent
One page per mod, every tool's command on it. A separate URL per tool would split the same page into five that compete with each other.
npx skills add AlterLab-IEU/AlterLab-Academic-Skills --skill alterlab-pyhealthgit clone --depth 1 https://github.com/AlterLab-IEU/AlterLab-Academic-SkillsWrote this? Show the measurements
A badge with what this costs and how it scanned, read live from this page, so it follows the numbers instead of freezing them. Markdown for a README, HTML for a documentation site or a project page.
[](https://agentmods.dev/skills/alterlab-ieu/alterlab-academic-skills/alterlab-pyhealth)<a href="https://agentmods.dev/skills/alterlab-ieu/alterlab-academic-skills/alterlab-pyhealth"><img src="https://agentmods.dev/badge/skills/alterlab-ieu/alterlab-academic-skills/alterlab-pyhealth/github.svg" alt="Measured on agentmods" height="20"></a>Or the 80×15 button, for a site that already has a row of RSS and ATOM ones. Only the verdict fits; the numbers stay here.
<a href="https://agentmods.dev/skills/alterlab-ieu/alterlab-academic-skills/alterlab-pyhealth"><img src="https://agentmods.dev/badge/skills/alterlab-ieu/alterlab-academic-skills/alterlab-pyhealth.svg" alt="Reviewed on agentmods" width="80" height="20"></a>- NVIDIA SkillSpector pass
What it costs to keep this loaded
Counted locally with the o200k_base tokenizer, which is exact for GPT models; Claude uses its own tokenizer and its counts differ. Treat this as one consistent yardstick across the catalogue rather than a bill. Prices are per million input tokens.
| Model | Per session | Once invoked |
|---|---|---|
| Fable 5.1 | $0.00117 | $0.04817 |
| Opus 5 | $0.00059 | $0.02409 |
| Sonnet 5 | $0.00023 | $0.00963 |
| Haiku 4.5 | $0.00012 | $0.00482 |
Grade A, and why
alterlab-pyhealth scanned grade A with 0 findings against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured 12d ago.
A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.
Nothing flagged
None of the 26 patterns this scan looks for appear in this file: no shell pipes, no recursive deletes, no credential paths, no hidden text, no instruction-override or anti-refusal phrasing, no agent-config snooping. That is not a guarantee, it is the absence of the things that are checkable.
How it starts
The opening of the file, as written. The whole thing — 510 lines — stays where its author put it; the contents beside it link to each section on GitHub.
PyHealth: Healthcare AI Toolkit
Overview
PyHealth is a comprehensive Python library for healthcare AI that provides specialized tools, models, and datasets for clinical machine learning. Use this skill when developing healthcare prediction models, processing clinical data, working with medical coding systems, or deploying AI solutions in healthcare settings.
Version gotcha (read first). This skill targets PyHealth 2.x (pin
pyhealth==2.0.1). The 2.0 rewrite changed the API in ways the wider web (and pre-2024 tutorials) get wrong:
- Tasks are classes you instantiate, e.g.
MortalityPredictionMIMIC4(),DrugRecommendationMIMIC3()— not the old snake-casemortality_prediction_mimic4_fnfunctions. Pass the instance todataset.set_task(task).- Datasets take an explicit
tables=[...]list (e.g.tables=["diagnoses_icd", "procedures_icd", "prescriptions"]).- Models require
label_key=in addition tofeature_keys=andmode=. Common feature keys for EHR tasks are"conditions","procedures","drugs".- Metric names have no
_scoresuffix:pr_auc,roc_auc,f1; multilabel/drug-rec use the*_samplesfamily (jaccard_samples,f1_samples,pr_auc_samples,ddi). Passmetrics=[...]to theTrainerconstructor, andmonitor=one of those names.- 2.0.1 requires Python 3.12 or 3.13 (
>=3.12,<3.14). When unsure of a class/arg name, check the current source rather than trusting older snippets.
When to Use This Skill
Invoke this skill when:
- Working with healthcare datasets: MIMIC-III, MIMIC-IV, eICU, OMOP, sleep EEG data, medical images
- Clinical prediction tasks: Mortality prediction, hospital readmission, length of stay, drug recommendation
- Medical coding: Translating between ICD-9/10, NDC, RxNorm, ATC coding systems
- Processing clinical data: Sequential events, physiological signals, clinical text, medical images
- Implementing healthcare models: RETAIN, SafeDrug, GAMENet, StageNet, Transformer for EHR
- Evaluating clinical models: Fairness metrics, calibration, interpretability, uncertainty quantification
What ships with it
7 files beside SKILL.md in the same directory: the scripts, references and assets a skill reads on demand. Not counted in the per-session cost; read them before you install if any of them is executable.
What this file has done since we first saw it
Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.
- 12d ago First seen · 510 lines · 117 tokens per session scan A 991a64ba28e7
alterlab-pyhealth is a skill published in the GitHub repository AlterLab-IEU/AlterLab-Academic-Skills (66 stars, last pushed 7d ago), licensed MIT. It adds 117 tokens to every session and 4,817 once invoked, about $0.0006 per session on Opus 5. A static security scan graded it A with 0 findings. No closer match exists in the catalogue, so it is treated as the original; first seen 2026-08-30.
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